BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 042834
(98 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2HII|A Chain A, Heterotrimeric Pcna Sliding Clamp
pdb|2HII|X Chain X, Heterotrimeric Pcna Sliding Clamp
pdb|2HIK|L Chain L, Heterotrimeric Pcna Sliding Clamp
pdb|2HIK|X Chain X, Heterotrimeric Pcna Sliding Clamp
pdb|2HIK|A Chain A, Heterotrimeric Pcna Sliding Clamp
Length = 257
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 14 AAIKLSDQTAGLGVIIRDSRGKAVAATVQKVSFRGDVAYMEAAAVNLGIQVAQNAKFLPI 73
A I+L++ +GL +IIRD + A +T+ + +G V + VNL + + L +
Sbjct: 87 ATIELTETDSGLKIIIRDEKSGA-KSTIYIKAEKGQVEQLTEPKVNLAVNFTTDESVLNV 145
Query: 74 I 74
I
Sbjct: 146 I 146
>pdb|2NTI|D Chain D, Crystal Structure Of Pcna123 Heterotrimer.
pdb|2NTI|A Chain A, Crystal Structure Of Pcna123 Heterotrimer.
pdb|2NTI|G Chain G, Crystal Structure Of Pcna123 Heterotrimer.
pdb|2IO4|A Chain A, Crystal Structure Of Pcna12 Dimer From Sulfolobus
Solfataricus.
pdb|2IO4|C Chain C, Crystal Structure Of Pcna12 Dimer From Sulfolobus
Solfataricus.
pdb|3FDS|C Chain C, Structural Insight Into Recruitment Of Translesion Dna
Polymerase Dpo4 To Sliding Clamp Pcna
Length = 249
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 14 AAIKLSDQTAGLGVIIRDSRGKAVAATVQKVSFRGDVAYMEAAAVNLGIQVAQNAKFLPI 73
A I+L++ +GL +IIRD + A +T+ + +G V + VNL + + L +
Sbjct: 87 ATIELTETDSGLKIIIRDEKSGA-KSTIYIKAEKGQVEQLTEPKVNLAVNFTTDESVLNV 145
Query: 74 I 74
I
Sbjct: 146 I 146
>pdb|2IZO|C Chain C, Structure Of An Archaeal Pcna1-Pcna2-Fen1 Complex
pdb|2IX2|A Chain A, Crystal Structure Of The Heterotrimeric Pcna From
Sulfolobus Solfataricus
Length = 249
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 14 AAIKLSDQTAGLGVIIRDSRGKAVAATVQKVSFRGDVAYMEAAAVNLGIQVAQNAKFLPI 73
A I+L++ +GL +IIRD + A +T+ + +G V + VNL + + L +
Sbjct: 87 ATIELTETDSGLKIIIRDEKSGA-KSTIYIKAEKGQVEQLTEPKVNLAVNFTTDESVLNV 145
Query: 74 I 74
I
Sbjct: 146 I 146
>pdb|3SQS|A Chain A, Crystal Structure Of A Putative Mandelate RacemaseMUCONATE
Lactonizing Protein From Dinoroseobacter Shibae Dfl 12
Length = 413
Score = 26.2 bits (56), Expect = 5.3, Method: Composition-based stats.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 12 VDAAIKLSDQTAGLGVIIRDSRGK 35
VD ++L D T GLG+ I D+ K
Sbjct: 384 VDGYLQLDDDTPGLGITISDAHLK 407
>pdb|2Z2C|A Chain A, Mura Inhibited By Unag-Cnicin Adduct
pdb|2Z2C|B Chain B, Mura Inhibited By Unag-Cnicin Adduct
pdb|2Z2C|C Chain C, Mura Inhibited By Unag-Cnicin Adduct
pdb|2Z2C|D Chain D, Mura Inhibited By Unag-Cnicin Adduct
Length = 423
Score = 25.4 bits (54), Expect = 8.4, Method: Composition-based stats.
Identities = 21/64 (32%), Positives = 28/64 (43%), Gaps = 3/64 (4%)
Query: 14 AAIKLSDQTAGLGVIIRDSRGKAVAATVQKVSFRGDVAYMEAAAVNLGIQVAQNAKFLPI 73
A IKL + V D R K + KVS V M AA + G + +NA P
Sbjct: 134 ATIKLEEGYVKASV---DGRLKGAHIVMDKVSVGATVTIMCAATLAEGTTIIENAAREPE 190
Query: 74 IVES 77
IV++
Sbjct: 191 IVDT 194
>pdb|3KQJ|A Chain A, Mura Binary Complex With Udp-N-Acetylglucosamine
pdb|3KR6|A Chain A, Mura Dead-End Complex With Fosfomycin
Length = 419
Score = 25.4 bits (54), Expect = 8.6, Method: Composition-based stats.
Identities = 21/64 (32%), Positives = 28/64 (43%), Gaps = 3/64 (4%)
Query: 14 AAIKLSDQTAGLGVIIRDSRGKAVAATVQKVSFRGDVAYMEAAAVNLGIQVAQNAKFLPI 73
A IKL + V D R K + KVS V M AA + G + +NA P
Sbjct: 134 ATIKLEEGYVKASV---DGRLKGAHIVMDKVSVGATVTIMCAATLAEGTTIIENAAREPE 190
Query: 74 IVES 77
IV++
Sbjct: 191 IVDT 194
>pdb|1UAE|A Chain A, Structure Of Udp-N-Acetylglucosamine Enolpyruvyl
Transferase
Length = 419
Score = 25.4 bits (54), Expect = 8.9, Method: Composition-based stats.
Identities = 21/64 (32%), Positives = 28/64 (43%), Gaps = 3/64 (4%)
Query: 14 AAIKLSDQTAGLGVIIRDSRGKAVAATVQKVSFRGDVAYMEAAAVNLGIQVAQNAKFLPI 73
A IKL + V D R K + KVS V M AA + G + +NA P
Sbjct: 134 ATIKLEEGYVKASV---DGRLKGAHIVMDKVSVGATVTIMCAATLAEGTTIIENAAREPE 190
Query: 74 IVES 77
IV++
Sbjct: 191 IVDT 194
>pdb|1A2N|A Chain A, Structure Of The C115a Mutant Of Mura Complexed With The
Fluorinated Analog Of The Reaction Tetrahedral
Intermediate
Length = 419
Score = 25.4 bits (54), Expect = 9.0, Method: Composition-based stats.
Identities = 21/64 (32%), Positives = 28/64 (43%), Gaps = 3/64 (4%)
Query: 14 AAIKLSDQTAGLGVIIRDSRGKAVAATVQKVSFRGDVAYMEAAAVNLGIQVAQNAKFLPI 73
A IKL + V D R K + KVS V M AA + G + +NA P
Sbjct: 134 ATIKLEEGYVKASV---DGRLKGAHIVMDKVSVGATVTIMCAATLAEGTTIIENAAREPE 190
Query: 74 IVES 77
IV++
Sbjct: 191 IVDT 194
>pdb|3ISS|A Chain A, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
pdb|3ISS|B Chain B, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
pdb|3ISS|C Chain C, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
pdb|3ISS|D Chain D, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
pdb|3ISS|E Chain E, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
pdb|3ISS|F Chain F, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
pdb|3ISS|G Chain G, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
pdb|3ISS|H Chain H, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
pdb|3ISS|I Chain I, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
pdb|3ISS|J Chain J, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
pdb|3ISS|K Chain K, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
pdb|3ISS|L Chain L, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
Length = 418
Score = 25.4 bits (54), Expect = 9.0, Method: Composition-based stats.
Identities = 21/64 (32%), Positives = 28/64 (43%), Gaps = 3/64 (4%)
Query: 14 AAIKLSDQTAGLGVIIRDSRGKAVAATVQKVSFRGDVAYMEAAAVNLGIQVAQNAKFLPI 73
A IKL + V D R K + KVS V M AA + G + +NA P
Sbjct: 134 ATIKLEEGYVKASV---DGRLKGAHIVMDKVSVGATVTIMCAATLAEGTTIIENAAREPE 190
Query: 74 IVES 77
IV++
Sbjct: 191 IVDT 194
>pdb|3SWD|A Chain A, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
pdb|3SWD|B Chain B, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
pdb|3SWD|C Chain C, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
pdb|3SWD|D Chain D, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
pdb|3SWD|E Chain E, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
pdb|3SWD|F Chain F, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
pdb|3SWD|G Chain G, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
pdb|3SWD|H Chain H, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
pdb|3SWD|I Chain I, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
pdb|3SWD|J Chain J, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
pdb|3SWD|K Chain K, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
pdb|3SWD|L Chain L, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
Length = 418
Score = 25.4 bits (54), Expect = 9.2, Method: Composition-based stats.
Identities = 21/64 (32%), Positives = 28/64 (43%), Gaps = 3/64 (4%)
Query: 14 AAIKLSDQTAGLGVIIRDSRGKAVAATVQKVSFRGDVAYMEAAAVNLGIQVAQNAKFLPI 73
A IKL + V D R K + KVS V M AA + G + +NA P
Sbjct: 134 ATIKLEEGYVKASV---DGRLKGAHIVMDKVSVGATVTIMCAATLAEGTTIIENAAREPE 190
Query: 74 IVES 77
IV++
Sbjct: 191 IVDT 194
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.316 0.130 0.357
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,325,092
Number of Sequences: 62578
Number of extensions: 69417
Number of successful extensions: 198
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 197
Number of HSP's gapped (non-prelim): 13
length of query: 98
length of database: 14,973,337
effective HSP length: 64
effective length of query: 34
effective length of database: 10,968,345
effective search space: 372923730
effective search space used: 372923730
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)